Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.18.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.67303	0.029
27DAP/17DAP	0.8126	0.522
39DAP/27DAP	1.60402	0.08
41DAP/39DAP	1.32577	0.701
42DAP/41DAP	1.05821	1
43DAP/42DAP	1.18119	1
47DAP/43DAP	0.67377	0.165
52DAP/47DAP	1.33245	0.553
57DAP/52DAP	1.17859	0.964

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08966	0.29
17DAP/reference	1.0636	0.161
27DAP/reference	1.00444	0.996
39DAP/reference	0.96456	0.513
41DAP/reference	1.06589	0.338
42DAP/reference	1.15243	0.016
43DAP/reference	1.01314	0.838
47DAP/reference	1.16876	0.019
52DAP/reference	0.97514	0.449
57DAP/reference	0.91986	0.096

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.61691	0.03
27DAP/17DAP	1.17261	0.233
39DAP/27DAP	0.95642	0.648
41DAP/39DAP	1.14427	0.674
42DAP/41DAP	1.20727	0.111
43DAP/42DAP	0.99445	0.875
47DAP/43DAP	0.987	0.93
52DAP/47DAP	0.81704	0.065
57DAP/52DAP	1.06994	0.798
57DAP/7DAP	0.80856	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.51299	0.026
17DAP/reference	0.99099	0.693
27DAP/reference	1.01529	0.974
39DAP/reference	1.02431	0.96
41DAP/reference	1.00525	0.741
42DAP/reference	1.13889	0.308
43DAP/reference	1.09046	0.537
47DAP/reference	1.02708	1
52DAP/reference	1.01237	0.74
57DAP/reference	0.94289	0.26

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32803	0.241
17DAP/reference	1.1142	0.107
27DAP/reference	1.11519	0.292
39DAP/reference	1.00752	0.745
41DAP/reference	0.89908	0.098
42DAP/reference	0.91915	0.212
43DAP/reference	0.93169	0.344
47DAP/reference	0.93019	0.24
52DAP/reference	0.92218	0.023
57DAP/reference	1.05103	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.59845	0.033
17DAP/reference	0.97098	0.579
27DAP/reference	0.9609	0.319
39DAP/reference	1.03087	0.885
41DAP/reference	0.84485	0.07
42DAP/reference	0.92455	0.361
43DAP/reference	1.11412	0.264
47DAP/reference	0.96678	0.421
52DAP/reference	1.46247	0.086
57DAP/reference	0.85703	0.078

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05024	0.966
26DAP/20DAP	1.61831	0.102
34DAP/26DAP	0.83228	0.356
51DAP/34DAP	1.09143	0.637
52DAP/51DAP	1.02716	0.939
53DAP/52DAP	0.96249	0.83
55DAP/53DAP	0.77367	0.243
57DAP/55DAP	1.28664	0.745
62DAP/57DAP	0.87284	0.28
68DAP/62DAP	0.90097	0.464
68DAP/14DAP	0.77067	0.375

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.65137	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.17618	0.176
Mature Green Tomato/Ripe Tomato	0.74464	0.066
Immature Eggplant/Mature Eggplant	1.44151	0.05
Ripe Pepper/Ripe Tomato	0.67472	0.224
Mature Eggplant/Ripe Tomato	1.2311	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.18312	1
1-1-2/M82	1.1286	1
12-2/M82	0.94329	0.955
12-4/M82	1.40372	1
1-3/M82	1.84867	1
2-1-1/M82	1.12535	0.439
2-1/M82	1.26903	0.328
2-6/M82	1.37538	0.329
3-2/M82	1.44829	0.84
4-1-1/M82	0.98823	1
4-1/M82	3.23384	1
4-3-2/M82	1.55318
4-3/M82	1.50145	1
5-3/M82	1.17487	0.572
6-2/M82	1.75225	0.253
6-3/M82	0.64869	0.916
7-1/M82	0.80954
7-2/M82	1.23319	0.385
9-3-2/M82	1.87314	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9656	1
IL2-6/WTpooled	0.78584	1
IL7-5/WTpooled	1.34637	0.792
IL7-3/WTpooled	1.13276	1
IL12-4/WTpooled	1.0236	1
IL1-4/WTpooled	0.79136	0.699
WT/WTpooled	0.95286	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.26635	0.699

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00561	0.921
DC3000/delta hrp 6h	0.96042	0.95
DC3000/delta hrp 12h	1.13043	1
DC3000/delta hrp 24h	0.9106	0.43

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15621	0.068
DC3000 delta B/DC3000 delta AB	1.23798	0.128

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0106	1
Exp 36h	1.06706	1
Exp 60h	1.0455	1

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.05231	1
Var 0h	1.13912	0.936
Var 12h I row2-row1	0.93608	0.705
Var 12h NI row2-row1	1.18785	0.34
Var 36h I row2-row1	1.20979	1
Var 36h NI row2-row1	0.76335	0.378
Var 60h I row2-row1	0.71909	0.374
Var 60h NI row2-row1	0.83519	0.516
Time course 0hI-0hNI	0.96251	0.817
Time course 12hI-12hNI	1.12506	0.122
Time course 36hI-36hNI	1.29797	0.014
Time course 60hI-60hNI	1.85693	0.008

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.05867	0.511
transgenic ySAMdc/azygous control (breaker)	0.77833	0.118
transgenic ySAMdc/azygous control (red)	1.03265	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.19609	0.092

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.62714	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08631	0.083
Manapal/WT (break)	0.86359	1
Manapal/WT (red)	0.56132	0.181